# Examples

Examples from real datasets you'd actually analyse.

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:::{grid-item-card} Visium mouse brain
:link: /notebooks/examples/visium_mouse_brain
:link-type: doc
:img-top: /notebooks/_static/img/visium_mouse_brain.png

Render H&E tissue, overlay spots, color by gene expression and by cluster,
and finish with a publication-style figure.
:::

:::{grid-item-card} Interactive region annotation
:link: /notebooks/examples/interactive_annotate
:link-type: doc
:img-top: /notebooks/_static/img/interactive_annotate.png

Draw regions of interest directly on a `spatialdata-plot` canvas with
`sdata.pl.annotate(...)` and persist them as a `ShapesModel` element.
:::

:::{grid-item-card} Colouring points
:link: /notebooks/examples/colouring_points
:link-type: doc
:img-top: /notebooks/_static/img/colouring_points.png

Colour a point element by continuous (`cmap`, `norm`, colorbar) or
categorical (`palette`, `groups`, `na_color`, legend) columns, and tune
`size`/`alpha`, on real Xenium transcripts.
:::

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```{toctree}
:hidden:
:maxdepth: 1

visium_mouse_brain
interactive_annotate
colouring_points
```